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Amino Acid Composition Distribution: a Novel Sequence Representation for Prediction of Protein Subcellular Localization

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4 Author(s)
Jianyu Shi ; Sch. of Comput. Sci., Northwestern Polytech. Univ., Xi''an ; Shaowu Zhang ; Quan Pan ; Guo-Ping Zhou

A novel representation of protein sequence, amino acid composition distribution (AACD), is introduced to perform prediction of subcellular localization in this paper. First, a protein sequence is divided equally into multiple segments. Then, amino acid composition of each segment is calculated in series. After that, each protein sequence can be represented a feature vector. Finally, feature vectors of all sequences are further input into multi-class support vector machines to predict the subcellular localization. The results show that AACD is more effective to represent protein sequence and is non-sensitive to sequence similarity because of the better ability to reflect the information of protein subcellular localization.

Published in:

Bioinformatics and Biomedical Engineering, 2007. ICBBE 2007. The 1st International Conference on

Date of Conference:

6-8 July 2007